From b1cd65ec78ef9f049e3ce7718c0c6a3d367f77da Mon Sep 17 00:00:00 2001
From: Hannah Pliner <hpliner@gmail.com>
Date: Mon, 27 Feb 2023 19:39:39 +0100
Subject: [PATCH] Update data objects

---
 .github/workflows/check-standard.yaml | 2 ++
 R/data.R                              | 4 ++++
 man/cell_data.Rd                      | 2 +-
 man/cicero_data.Rd                    | 2 +-
 man/gene_annotation_sample.Rd         | 2 +-
 man/human.hg19.genome.Rd              | 2 +-
 6 files changed, 10 insertions(+), 4 deletions(-)

diff --git a/.github/workflows/check-standard.yaml b/.github/workflows/check-standard.yaml
index 99da3f5..1ae6a3e 100644
--- a/.github/workflows/check-standard.yaml
+++ b/.github/workflows/check-standard.yaml
@@ -1,6 +1,8 @@
 # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
 # Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
 on:
+  schedule:
+    - cron: '0 0 1 * *'
   push:
     branches: [main, master, monocle3]
   pull_request:
diff --git a/R/data.R b/R/data.R
index d1f6b42..c40221d 100755
--- a/R/data.R
+++ b/R/data.R
@@ -10,6 +10,7 @@
 #'   \item{Cell}{Cell ID}
 #'   \item{Count}{Reads per cell per peak}
 #' }
+#' @usage data(cicero_data)
 "cicero_data"
 
 #' Chromosome lengths from human genome hg19
@@ -22,6 +23,7 @@
 #'   \item{V1}{Chromosome}
 #'   \item{V2}{Chromosome length, base pairs}
 #' }
+#' @usage data(human.hg19.genome)
 "human.hg19.genome"
 
 #' Example gene annotation information
@@ -40,6 +42,7 @@
 #'   \item{transcript}{Transcript ID}
 #'   \item{symbol}{Gene symbol}
 #' }
+#' @usage data(gene_annotation_sample)
 "gene_annotation_sample"
 
 #' Metadata for example cells in cicero_data
@@ -51,4 +54,5 @@
 #'   \item{timepoint}{Time at cell collection}
 #'   \item{cell}{Cell barcode}
 #' }
+#' @usage data(cell_data)
 "cell_data"
diff --git a/man/cell_data.Rd b/man/cell_data.Rd
index 8b404c4..5cce2fd 100755
--- a/man/cell_data.Rd
+++ b/man/cell_data.Rd
@@ -12,7 +12,7 @@ A data frame with 200 rows and 2 variables:
 }
 }
 \usage{
-cell_data
+data(cell_data)
 }
 \description{
 Metadata information for cicero_data
diff --git a/man/cicero_data.Rd b/man/cicero_data.Rd
index 3acbd28..32216ee 100755
--- a/man/cicero_data.Rd
+++ b/man/cicero_data.Rd
@@ -13,7 +13,7 @@ A data frame with 35137 rows and 3 variables:
 }
 }
 \usage{
-cicero_data
+data(cicero_data)
 }
 \description{
 A dataset containing a subset of a single-cell ATAC-seq
diff --git a/man/gene_annotation_sample.Rd b/man/gene_annotation_sample.Rd
index 4571259..2b96a76 100755
--- a/man/gene_annotation_sample.Rd
+++ b/man/gene_annotation_sample.Rd
@@ -18,7 +18,7 @@ A data frame with 15129 rows and 8 variables:
 }
 }
 \usage{
-gene_annotation_sample
+data(gene_annotation_sample)
 }
 \description{
 Gencode gene annotation data from chromosome 18 of the
diff --git a/man/human.hg19.genome.Rd b/man/human.hg19.genome.Rd
index 2a9bbc4..903d731 100755
--- a/man/human.hg19.genome.Rd
+++ b/man/human.hg19.genome.Rd
@@ -12,7 +12,7 @@ A data frame with 93 rows and 2 variables:
 }
 }
 \usage{
-human.hg19.genome
+data(human.hg19.genome)
 }
 \description{
 A list of the chromosomes in hg19 and their lengths